Table S2. Sequences, observed angles defined by residues of predicted topology (by TOPCONS), predicted
angles, moment lengths and MAAE on the 155 TMHs of the independent test set.
PDB:Chain
TOPCONS predicted topology
M̂
(MAAE)
PDBTM TM helix sequence
predicted TM helix sequence
observed angle
predicted angle
angular error
2XQ2:A
AVGASLIAANISAEQF
LPWWAVGASLIAANISAEQFI
275.09
271.92
3.17
0.47
(50.34)
ASYEWMSAITLIIV
YEWMSAITLIIVGKYFLPIFI
218.22
208.78
9.44
0.69
LAVFWISLYIFVNLTSVLYLG
ILAVFWISLYIFVNLTSVLYL
293.78
307.30
13.52
0.50
VWTDVIQVFFLVLGG
VIQVFFLVLGGFMTTYMAVSF
90.41
66.71
23.70
2.23
AVLIGGLWVANLYYWGFNQ
LPGIAVLIGGLWVANLYYWGF
206.63
35.69
170.94
0.35
VFAAFLALIVPFLV
AFLALIVPFLVVLPGIAAYVI
130.22
110.17
20.05
1.47
ALAAAIVSSLASMLNSTA
VKGVVFAALAAAIVSSLASML
230.19
109.97
120.22
0.98
RTAAVVALIIAALIA
VNVGRTAAVVALIIAALIAPM
158.03
151.48
6.55
2.49
QYIQEYTGLVSPGILA
QEYTGLVSPGILAVFLLGLFW
152.04
48.20
103.84
0.35
VVASIPFALFLKFM
GAIIGVVASIPFALFLKFMPL
299.65
283.57
16.08
1.46
FMDQMLYTLLFTMVV
QMLYTLLFTMVVIAFTSLSTS
303.88
258.31
45.57
1.57
AAYGIMIVLAVLYT
IAAYGIMIVLAVLYTLFWVNA
343.44
347.31
3.87
1.15
GVMAGVIGTILLISYGIK
LIIFGVMAGVIGTILLISYGI
265.54
23.05
117.51
0.16
2XUT:A
ASEACERFSFYGMRNILTPFL
FSFYGMRNILTPFLMTALLLS
332.39
356.70
24.31
0.62
(38.48)
VAKDVFHSFVIGVYFFPLLG
DVFHSFVIGVYFFPLLGGWIA
46.42
9.77
36.65
1.01
TILWLSLIYCVGHAFLAIFE
YNTILWLSLIYCVGHAFLAIF
85.88
93.39
7.51
1.88
GFYTGLFLIALGSGGIKP
HSVQGFYTGLFLIALGSGGIK
268.54
320.42
51.88
0.88
YFTINFGSFFASLSMPLLL
MFYFTINFGSFFASLSMPLLL
318.76
9.64
50.88
1.34
VAFGIPGVLMFVATVFFWL
AVAFGIPGVLMFVATVFFWLG
67.34
74.70
7.36
1.44
IGGVSAAYALVNIPTL
NIGLVLALIGGVSAAYALVNI
339.38
24.93
45.55
0.44
IVAGLCCAMVLVMGFVG
TLGIVAGLCCAMVLVMGFVGA
34.22
20.20
14.02
0.60
ALVTPFWSLFDQKASTWILQA
VLRILVLFALVTPFWSLFDQK
234.04
100.54
133.50
0.52
GAGIAITGLSWIVVGTIQ
MGAGIAITGLSWIVVGTIQLM
203.95
169.40
34.55
1.95
SIFWQILPYALLTFGEVLVS
IFWQILPYALLTFGEVLVSAT
125.97
94.43
31.54
0.65
FWTLSVTVGNLWVLLANVSV
TIMSFWTLSVTVGNLWVLLAN
35.48
11.51
23.97
0.94
3KBC:A
QKILIGLILGAIVGLI
VLQKILIGLILGAIVGLILGH
258.38
231.32
27.06
1.22
(64.97)
VKPFGDLFVRLLCMLVMPIVFASL
FVRLLCMLVMPIVFASLVVGA
244.98
236.02
8.96
0.64
AFAVTLGIIMARLFNPG
VYYLLTSAFAVTLGIIMARLF
43.48
54.70
11.22
1.46
QVLPTIFFAIIL
QVLPTIFFAIILGIAITYLMN
284.42
230.22
54.20
0.72
VMQYAPIGVFALIAYVM
GVMQYAPIGVFALIAYVMAEQ
247.58
44.30
156.72
0.75
VGELAKVTAAVYVGLTLQ
AVYVGLTLQILLVYFVLLKIY
282.99
265.68
17.31
1.10
GTALYQGVATFFIA
GTALYQGVATFFIANALGSHL
263.27
10.07
106.80
0.14
GAGAIMLCMVLHSVGLPLT
TAGVPGAGAIMLCMVLHSVGL
282.97
145.47
137.50
0.44
PDB:Chain
TOPCONS predicted topology
M̂
(MAAE)
PDBTM TM helix sequence
predicted TM helix sequence
observed angle
predicted angle
angular error
3KCU:A
YLAITAGVFISIAFVFYITATTGT
FYLAITAGVFISIAFVFYITA
104.96
61.44
43.52
0.76
(39.26)
PFGMAKLVGGICFSLGLILCV
LVGGICFSLGLILCVVCGADL
115.28
42.20
73.08
0.69
LNVYFGNLVGALLFVLLMWLSGEYMTA
WLNVYFGNLVGALLFVLLMWL
172.15
155.74
16.41
2.34
GLNVLQTADHKVHHTFIEAVCLGILANLMVCLAV
IEAVCLGILANLMVCLAVWMS
45.68
58.17
12.49
1.05
FIMVLPVAMFVA
AFIMVLPVAMFVASGFEHSIA
163.45
91.65
71.80
0.68
LTVMNFITDNLIPVTIGNIIGGGLL
VTIGNIIGGGLLVGLTYWVIY
232.52
250.79
18.27
0.66
3KG2:A
AYEIWMCIVFAYIGVSVVLF
EIWMCIVFAYIGVSVVLFLVS
8.96
314.45
54.51
1.54
(35.69)
SGRIVGGVWWFFTLIIISSYT
VGGVWWFFTLIIISSYTANLA
235.26
200.01
35.25
0.92
VAGVFYILVGGLGLAMLVAL
FYILVGGLGLAMLVALIEFCY
67.34
84.66
17.32
1.56
3KP9:A
ILAILAGLGSLLTAYLTYT
HSRLILAILAGLGSLLTAYLT
240.31
328.24
87.93
2.15
(52.97)
AEFLGIPTAAVGLLGFLGVLALAVL
LGIPTAAVGLLGFLGVLALAV
266.47
270.33
3.86
0.85
LFGLVSAMTAFEMYMLYLMVA
LFGLVSAMTAFEMYMLYLMVA
155.56
191.01
35.45
1.83
CMYCTTAIILVAGLGLVTV
FCMYCTTAIILVAGLGLVTVL
77.50
215.10
137.60
1.58
FSYILVAFLTLVTTIGVYANQ
LAFSYILVAFLTLVTTIGVYA
198.33
198.36
0.03
0.67
3L1L:A
GLIPVTLMVSGAIMGSGVFLLP
VGLIPVTLMVSGAIMGSGVFL
241.43
311.39
69.96
0.37
(20.75)
IYGWLVTIIGALGLSMVYAK
IAIYGWLVTIIGALGLSMVYA
289.65
261.74
27.91
1.57
LGYQTNVLYWLACWIGNIAMVVIGVGYL
VLYWLACWIGNIAMVVIGVGY
0.74
347.54
13.20
0.78
LTITCVVVLWIFVLLNIVGP
PWVLTITCVVVLWIFVLLNIV
170.47
188.68
18.22
1.59
MITRVQAVATVLALIPIVGIAVFGW
VATVLALIPIVGIAVFGWFWF
28.16
336.63
51.53
2.11
PIATIGGVLIAAVCYVLSTTA
GGVLIAAVCYVLSTTAIMGMI
347.68
349.69
2.01
1.44
VSFCAAAGCLGSLGGWTLLAGQTAK
AIVSFCAAAGCLGSLGGWTLL
35.60
30.83
4.77
0.89
VAGLIIVGILMTIFQLSSISPNA
VAGLIIVGILMTIFQLSSISP
88.25
99.50
11.25
1.56
FGLVSSVSVIFTLVPYLYTCAAL
FGLVSSVSVIFTLVPYLYTCA
160.84
181.12
20.28
1.19
AYLAVTTIAFLYCIWAVVGSGA
AYLAVTTIAFLYCIWAVVGSG
270.41
279.40
8.99
1.75
EVMWSFVTLMVITAMYALN
EVMWSFVTLMVITAMYALNYN
224.20
224.28
0.08
1.86
3M71:A
GYFGIPLGLAALSLAW
FPLPTGYFGIPLGLAALSLAW
341.77
359.56
17.79
0.32
(22.40)
SDVLGIVASAVWILFILMYAY
SDVLGIVASAVWILFILMYAY
165.18
183.80
18.62
2.22
FIALIPITTMLVGDIL
FSFIALIPITTMLVGDILYRW
287.37
317.27
29.90
0.34
AEVLIWIGTIGQLLFSTLRVS
IAEVLIWIGTIGQLLFSTLRV
294.71
317.19
22.48
1.72
SFYLPAVAANFTSA
FYLPAVAANFTSASSLALLGY
153.77
199.49
45.72
0.24
YLFFGAGMIAWIIFEPVLL
LGYLFFGAGMIAWIIFEPVLL
282.17
283.84
1.67
1.54
MGIVLAPAFVCVSAY
ATMGIVLAPAFVCVSAYLSIN
203.05
222.00
18.95
1.06
AKILWGYGFLQLFFLLRLF
TLAKILWGYGFLQLFFLLRLF
5.74
349.44
16.30
1.11
GLWAFSFGLASMANSA
IGLWAFSFGLASMANSATAFY
286.90
327.80
40.90
0.17
SIFAFVFSNVMIGLLVLMTIYKLT
VSIFAFVFSNVMIGLLVLMTI
265.02
276.64
11.62
2.41
PDB:Chain
TOPCONS predicted topology
M̂
(MAAE)
PDBTM TM helix sequence
predicted TM helix sequence
observed angle
predicted angle
angular error
3MK7:A
QFAIMTVVWGIVGMGLGV
FAIMTVVWGIVGMGLGVFIAA
229.83
235.34
5.51
1.47
(52.44)
HTNAVIFAFGGCALFATS
TNAVIFAFGGCALFATSYYSV
169.08
111.18
57.90
0.48
LAAFTFWGWQLVILLAA
FTFWGWQLVILLAAISLPLGF
327.49
307.19
20.30
1.52
IDILITIVWVAYAVVFF
IDILITIVWVAYAVVFFGTLA
220.71
239.57
18.87
1.05
WFFGAFILTVAILHV
IYVGNWFFGAFILTVAILHVV
23.28
90.81
67.53
0.12
HNAVGFFLTAGFLGIM
WWYGHNAVGFFLTAGFLGIMY
104.56
276.21
171.65
0.18
IVHFWALITVYIWA
VYSYRLSIVHFWALITVYIWA
169.10
60.66
108.44
1.47
MSLILLAPSWGGMI
WAQSLGMVMSLILLAPSWGGM
303.71
311.71
8.00
1.41
FLVVSLAFYGMSTFEGPM
ILRFLVVSLAFYGMSTFEGPM
190.59
164.11
26.48
0.62
GHVHAGALGWVAMVSI
VHAGALGWVAMVSIGALYHLV
159.36
57.49
101.87
0.60
THFWLATIGTVLYIA
THFWLATIGTVLYIASMWVNG
343.30
325.64
17.66
2.16
RMIGGAIFFAGMLVMAY
GFVVRMIGGAIFFAGMLVMAY
218.32
193.22
25.10
2.40
3MK7:C
LTLGTIVALFWLIFA
WSGYIALLTLGTIVALFWLIF
299.69
234.95
64.74
1.86
(77.01)
RWWFLLFIGTLVFGI
WWFLLFIGTLVFGILYLVLYP
8.55
279.28
89.27
2.01
3MKT:A
ATPVLIASVAQTGMGFVD
LIKLATPVLIASVAQTGMGFV
161.97
149.56
12.41
1.56
(46.18)
WLPSILFGVGLLMALVPV
IAASIWLPSILFGVGLLMALV
265.22
50.98
145.76
0.62
QGLILALLVSVPIIAVLF
LILALLVSVPIIAVLFQTQFI
128.03
135.53
7.51
1.92
MHAVIFAVPAYLLFQALRSF
TVGYMHAVIFAVPAYLLFQAL
233.07
137.20
95.87
0.77
KPAMVIGFIGLLLNIPL
AMVIGFIGLLLNIPLNWIFVY
209.06
217.87
8.81
1.89
ATAIVYWIMLLLLLFYIV
GVATAIVYWIMLLLLLFYIVT
135.13
120.79
14.34
1.73
IRLFRLGFPVAAALFFEVTLFAVVA
LGFPVAAALFFEVTLFAVVAL
295.64
223.81
71.83
1.36
ALNFSSLVFMFPMSIGAA
VALNFSSLVFMFPMSIGAAVS
332.75
57.21
84.46
0.52
GLATACITALLTVLFREQIA
VGLMTGLATACITALLTVLFR
300.90
324.07
23.17
1.42
QLLLFAAIYQCMDAVQVVAAGS
VVALAMQLLLFAAIYQCMDAV
204.71
199.94
4.77
0.75
AIFHRTFISYWVLGLPTGYILGMT
FISYWVLGLPTGYILGMTNWL
212.38
171.66
40.72
0.95
GFWLGFIIGLSAAALML
AKGFWLGFIIGLSAAALMLGQ
212.56
168.00
44.56
0.72
3MP7:A
GVALILYYVLAEIPV
FMWTGVALILYYVLAEIPVYG
159.94
86.72
73.22
1.86
(51.17)
VFSVFMCFFEAAVWI
RVFSVFMCFFEAAVWILGGAF
190.56
134.70
55.86
1.47
ISLFIAAGVSQTILTRSLNP
IGSGISLFIAAGVSQTILTRS
28.63
73.01
44.38
0.10
DMLSVVATIVVFFIVVYF
DMLSVVATIVVFFIVVYFESM
178.49
156.63
21.86
2.10
NIPIILTFALYANIQLWA
FLYVSNIPIILTFALYANIQL
304.58
344.16
39.58
0.78
VRAIVYLILTVIFSLLFG
YLILTVIFSLLFGYLWVELTG
233.97
230.00
3.97
1.70
ALGTGTGILLTVGIL
LGALGTGTGILLTVGILYRFY
315.60
74.94
119.34
0.14
PDB:Chain
TOPCONS predicted topology
M̂
(MAAE)
PDBTM TM helix sequence
predicted TM helix sequence
observed angle
predicted angle
angular error
3NYM:A(97.58)
IASNSLFMAMIYAGNLSLIFD
IASNSLFMAMIYAGNLSLIFD
298.60
36.17
97.58
0.46
3O0R:B
YFVFALILFVGQILFGLIMGL
YFVFALILFVGQILFGLIMGL
227.91
237.47
9.56
2.08
(56.21)
ARMVHTNLLIVWLLFGFMGAAY
TNLLIVWLLFGFMGAAYYLVP
178.22
35.77
142.45
0.24
LAWILFWVFAAAGVLTILGYLL
ILFWVFAAAGVLTILGYLLVP
3.52
335.11
28.41
1.51
FLEQPTISKAGIVIVALGFLFNVGM
TISKAGIVIVALGFLFNVGMT
90.25
68.41
21.84
0.77
VLMTGLIGLALLFLFSFY
ISMVLMTGLIGLALLFLFSFY
187.07
174.26
12.81
0.94
WWWVVHLWVEGVWELIMGAIL
WVEGVWELIMGAILAFVLVKI
231.19
45.63
174.44
0.72
YVIIAMALISGIIGTGHH
IEKWLYVIIAMALISGIIGTG
198.02
219.12
21.11
0.78
LGSVFSALEPLPFFAMVLF
YWLWLGSVFSALEPLPFFAMV
260.00
305.21
45.21
1.05
AMGTTVMAFLGAGVWGFMHTL
ALWAMGTTVMAFLGAGVWGFM
58.30
136.16
77.86
0.98
LTAAHGHMAFYGAYAMIVMTII
GHMAFYGAYAMIVMTIISYAM
155.00
63.24
91.76
0.33
WGFWLMTVAMVFITLFLSAA
FWLMTVAMVFITLFLSAAGVL
159.65
135.11
24.54
2.53
FYWLREGAGVVFLIGLVAYLL
FYWLREGAGVVFLIGLVAYLL
226.19
201.59
24.60
2.05
3O7P:A
LLCSLFFLWAVANNLNDILL
YIIPFALLCSLFFLWAVANNL
222.02
194.84
27.18
1.19
(38.30)
QSAFYFGYFIIPIPAGILM
LIQSAFYFGYFIIPIPAGILM
345.08
17.32
32.25
1.52
KAGIITGLFLYALGAALFW
AGIITGLFLYALGAALFWPAA
348.20
339.45
8.75
2.04
FLVGLFIIAAGLGCLETAANPFV
NYTLFLVGLFIIAAGLGCLET
262.52
227.56
34.96
0.92
NLAQTFASFGAIIAVVFGQ
AQTFASFGAIIAVVFGQSLIL
291.77
261.77
30.00
1.20
TPYMIIVAIVLLVALLIML
VQTPYMIIVAIVLLVALLIML
154.18
200.28
46.10
1.75
RWAVLAQFCYVGAQTACWSYL
WRWAVLAQFCYVGAQTACWSY
205.66
146.72
58.94
0.64
LTGTMVCFFIGRFTGTWLI
ANYLTGTMVCFFIGRFTGTWL
159.76
104.50
55.26
2.02
KVLAAYALIAMALCLISAFA
VLAAYALIAMALCLISAFAGG
275.55
276.81
1.26
2.16
GLIALTLCSAFMSIQYPTIFSLG
VGLIALTLCSAFMSIQYPTIF
351.22
294.42
56.80
0.40
YGSSFIVMTIIGGGIVTPVM
SSFIVMTIIGGGIVTPVMGFV
232.13
132.35
99.78
1.08
TAELIPALCFAVIFIFARF
IPTAELIPALCFAVIFIFARF
159.54
151.25
8.29
1.74
3OE6:A
KIFLPTIYSIIFLTGIVGNGLVIL
PTIYSIIFLTGIVGNGLVILV
114.14
121.19
7.05
1.42
(25.14)
RLHLSVADLLFVITLPFWAVDA
KYRLHLSVADLLFVITLPFWA
321.82
311.54
10.28
0.52
GNFLCKAVHVIYTVNLYSSVWILAF
AVHVIYTVNLYSSVWILAFIS
263.54
302.09
38.55
0.66
YVGVWIPALLLTIPDFIFAN
KVVYVGVWIPALLLTIPDFIF
62.62
87.20
24.59
1.23
WVVVFQFQHIMVGLILPGIVILS
QHIMVGLILPGIVILSCYCII
315.73
4.76
49.03
1.56
ILILAFFACWLPYYIGISIDSFILL
KTTVILILAFFACWLPYYIGI
359.76
334.89
24.87
1.12
HKWISITEALAFFHCCLNPILYA
SITEALAFFHCCLNPILYAFL
81.37
103.00
21.64
1.27
3ORG:A
LRLVCFLTLLGVTAALFIFAVDLAVHGLE
LLRLVCFLTLLGVTAALFIFA
143.79
202.85
59.06
0.41
(59.70)
VSGVALCLLSTFWCAVLST
YILYVVSGVALCLLSTFWCAV
174.47
166.49
7.97
1.81
RVLFAKALGLICAIGG
LRVLFAKALGLICAIGGGLPV
129.23
37.86
91.37
0.99
LAAACAVGLASSFGA
LQTLAAACAVGLASSFGAPLG
120.50
12.17
108.33
0.27
LLYAILGALMGVLGALFIRCVRSIYELR
TLLYAILGALMGVLGALFIRC
148.16
153.48
5.32
2.33
PAGVFVPSFLIGAGFG
LPAGVFVPSFLIGAGFGRLYG
352.74
330.28
22.46
0.19
LVPVLISVLLAVIVGNAFN
IRHLVPVLISVLLAVIVGNAF
158.90
35.52
123.38
0.69
PDB:Chain
TOPCONS predicted topology
M̂
(MAAE)
PDBTM TM helix sequence
predicted TM helix sequence
observed angle
predicted angle
angular error
3P4W:A
PNIILPMLFILFISWTAFWS
SYIPNIILPMLFILFISWTAF
21.30
333.40
47.90
1.32
(24.78)
GAIIFMIYLFYFVAVIEVTV
TGAIIFMIYLFYFVAVIEVTV
178.77
180.43
1.66
1.18
3P5N:A
ISMLSAIAFVLTFIKF
LITISMLSAIAFVLTFIKFPI
128.49
96.86
31.63
0.74
(51.25)
TLDFSDVPSLLATF
VPSLLATFTFGPVAGIIVALV
202.69
94.59
108.10
1.25
PFNIIKGIVISIVFILLYRR
GIIPFNIIKGIVISIVFILLY
288.85
302.88
14.03
1.57
3PJZ:A
IRIVGLLLALFSVTMLAPALVALLY
VGLLLALFSVTMLAPALVALL
127.04
192.87
65.83
2.17
(24.68)
VPFVTTFFVLLFCGAMCWFPNR
AGVPFVTTFFVLLFCGAMCWF
210.26
201.54
8.72
2.29
FLIVVLFWTVLGSAGSLPFLIA
FLIVVLFWTVLGSAGSLPFLI
134.35
169.69
35.34
1.10
AILFYRQFLQWFGGMGIIVLAVAI
FLQWFGGMGIIVLAVAILPVL
326.27
305.61
20.66
0.52
KALWYIYLSLTIACAVAFWLAGMT
LWYIYLSLTIACAVAFWLAGM
217.07
214.65
2.42
2.33
YAINLITVVFLLISACNFTLHF
AINLITVVFLLISACNFTLHF
322.69
329.39
6.70
1.60
EFRAFIFIQVLLFLVCFLLLLK
AFIFIQVLLFLVCFLLLLKHH
297.12
328.83
31.71
1.55
LFLPVLLLFSSFIGGCAG
FLPVLLLFSSFIGGCAGSTGG
320.19
333.63
13.44
0.45
WGFFSAYALVFVVCMLGLIATGMD
DAVWGFFSAYALVFVVCMLGL
330.44
2.03
31.59
1.56
KAKWVLIVSMLFGRLEIFTLL
WVLIVSMLFGRLEIFTLLILL
40.12
9.71
30.41
1.02